ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GCCCAACGTGGTCTACCGCGGCACGCTCTTCAGCTCCGGCCGCACCGTCGCCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaactggctcagtgtgatggatggatcgtttcttatgttcgtcttgcctctgcggcgtctgattgaatggctgcgtgtgcccgtgggtgcag

Basic information

species	Zea mays
transcript	GRMZM2G121826_T02
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G121826_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g61010.1 (Oryza sativa), 5'ss of exon 2

GCCCAACGTGGTCTACCGCGGCACGCTCTTCAGCTCCGGCCGCACCGTCGCCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaactggctcagtgtgatggatggatcgtttcttatgttcgtcttgcctctgcggcgtctgattgaatggctgcgt------gtgcccgtgggtgcag
||||||||| |||||||||||||| ||||||||| ||||||||||||| ||||||||||||||||||||||| |||||||| ||||| || |||||| ||||||||||| ||            | | |  |||        || | | |||||||  || || || |||||||||||| |||      |||   ||| ||||||
GCCCAACGTCGTCTACCGCGGCACCCTCTTCAGCACCGGCCGCACCGTGGCCATCAAGCGCTTCGGCCGCTCTGCCTGGCCCGACTCCCGCCAGTTCTTGgttcgtgcagct------------ttgctccatctgcatcagtgcttgccttgccttcgccgcttc-gattgaatggctccgttcttgcgtgtgtgtgtgtgcag

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments

ATGC    EST sequence
ATGC    genomic sequence (exon)
ATGC    genomic sequence (truncated intron)

EST: gi|211419062|gb|FL425552.1|FL425552

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTG                         GAGGANGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGC
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGC

EST: gi|148945740|gb|EC891020.2|EC891020

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTG                         GAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG

EST: gi|50338612|gb|CO533738.1|CO533738

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTG                         GAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG

EST: gi|91055451|gb|EB165869.1|EB165869

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTG                         GAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG

EST: gi|211493009|gb|FL369794.1|FL369794

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTG                         GAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG

EST: gi|71299876|gb|DR785964.1|DR785964

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTG                         GAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG

EST: gi|71772711|gb|DR970638.1|DR970638

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTG                         GAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG

EST: gi|148982427|gb|EE028311.2|EE028311

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTG                         GAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG

EST: gi|149102733|gb|EE188271.2|EE188271

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTG                         GAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG

EST: gi|149103589|gb|EE288989.2|EE288989

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTG                         GAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG

EST: gi|18659368|gb|BM500301.1|BM500301

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTG                         GAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG

EST: gi|149036971|gb|EE155209.2|EE155209

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTG                         GAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG

EST: gi|71302365|gb|DR787300.1|DR787300

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTG                         GAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG

EST: gi|211227820|gb|FL399533.1|FL399533

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTG                         GAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG

EST: gi|149012049|gb|EE042465.2|EE042465

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTG                         GAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG

EST: gi|9255138|gb|BE345606.1|BE345606

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTG                         GAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGT
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGT

EST: gi|211332705|gb|FL418379.1|FL418379

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGNTCCTG                         GAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCAAATCTG
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG

EST: gi|71327655|gb|DR800438.1|DR800438

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTG                         GAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG

EST: gi|211443081|gb|FL371156.1|FL371156

EST:     CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTG                         GAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG
genomic: CCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTG

RNA-Seq data

ATGC Supported by RNA-Seq exonic block that spans over the splice site

atgs Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.

Found data for 4 RNA-Seq libraries.

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 90

GCCCAACGTGGTCTACCGCGGCACGCTCTTCAGCTCCGGCCGCACCGTCGCCATCAAGCGCTTCGGCCGCTCCGCCTGGCCGGACTCACGACAGTTCCTGgttcgtgcaa ... gtgggtgcagGAGGAGGCGAGGGCTGTTGGGCAGCTGCGCAGTCGCCGGCTGGCCAATCTGATCGGTTGCTGCTACGAGAGCGGCGAGCGTCTCCTCGTCGCCGAGTTCA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 27

Block sizes: 46 (upstream exon), 47 (downstream exon)
Score: 30